Re: [galaxy-user] Does Tophat output *.accepted hits file contain headers?

Hello Jianguang, BAM files are indexed as part of the specification. But the content can vary with respect to read groups, samples, and other attributes. The best advice is to review the SAM/BAM specification: http://samtools.sourceforge.net/samtools.shtml Then examine the contents of the

[galaxy-user] Does Tophat output *.accepted hits file contain headers?

Dear All, I want to use the Tophat output files with .accepted hits to do analysis outside Galaxy. However, the program I am using requires the Tophat output to be indexed, sorted BAM files that contain headers. Do the Tophat ouputs with .accepted hits produced at Galaxy contain headers? Will